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* Install the new bin/fg21sim-download-cluster-dataAaron LI2016-10-201-0/+1
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* Add bin/fg21sim-download-cluster-dataAaron LI2016-10-201-0/+131
| | | | | This script retrieves the galaxy cluster catalog data simulated by the Hubble Volume Project, and organizes the data to a CSV file.
* configs/manager.py: Update docstring and commentAaron LI2016-10-191-3/+9
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* foregrounds.py: Fix the too-long FITS keyword with commentAaron LI2016-10-181-2/+3
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* configs: Remove the unused config "ordering"Aaron LI2016-10-181-3/+1
| | | | All HEALPix maps used are in *RING* ordering.
* galactic/{freefree,synchrotron}.py: Fix small bugsAaron LI2016-10-182-2/+2
| | | | | * freefree.py: Add the missing "/" to the config "halphamap" * synchrotron.py: Fix "comp" to have the correct value
* foregrounds.py: Fix two small bugs and test is OKAaron LI2016-10-181-4/+5
| | | | | | * Fix the wrong import path * Add the missing "output_dir" property * Tweak the comments/messages a bit
* bin/fg21sim: Rewrite to use the interface from foreground.pyAaron LI2016-10-181-44/+5
| | | | | This greatly simplifies the "bin/fg21sim" script, and also makes the script more generic.
* Add "foregrounds.py" as the interface to foregrounds simulationAaron LI2016-10-182-3/+205
| | | | | This module provides a simple/easy-to-use interface to the simulation of various supported foreground components.
* galactic/synchrotron.py: Add preocess(), postprocess, _make_filepath()Aaron LI2016-10-181-41/+75
| | | | | | * Add the "preprocess()" and "postprocess()" for a better interface; * Add "_make_filepath()" to compose the output filename; * Reorder some methods for consistency.
* galactic/freefree.py: Add preocess(), postprocess, _make_filepath()Aaron LI2016-10-181-52/+90
| | | | | | | * Add the "preprocess()" and "postprocess()" for a better interface; * Add "_make_filepath()" to compose the output filename; * Reorder some methods for consistency; * Some refactorings and cleanups.
* galctic/snr.py: Add "preprocess()" and "postprocess()" methodsAaron LI2016-10-181-70/+86
| | | | | | | * Add "preprocess()" and "postprocess()" methods * Add the "name" property * Tweak the places of preparation procedures been invoked * Reorder some methods
* galactic/snr.py: Fix the existence check of dir of catalog ouputAaron LI2016-10-171-1/+1
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* galactic: Move the "simulate()" method; Add "UNIT" keywordAaron LI2016-10-172-26/+28
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* galactic/snr.py: Create dir if necessary and adhere clobber configAaron LI2016-10-171-0/+11
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* galactic/snr.py: Fix various issues, and works almost OK.Aaron LI2016-10-171-7/+22
| | | | Barely test and seems OK.
* bin/fg21sim: Add one debug before logging availableAaron LI2016-10-171-0/+3
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* configs/manager.py: Fix the bug that breaks specifications loadingAaron LI2016-10-171-1/+4
| | | | | | | The "filter()" returns an iterator, that is consumed after the use, therefore, the "specfiles" is used by the print under "DEBUG_FG21SIM". Then "specfiles" is empty and thus prevents the reading of the specification files.
* configs/validate.py: Add "check_galactic_snr()" for "galactic/snr"Aaron LI2016-10-171-0/+16
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* bin/fg21sim: Support new component "galactic/snr"Aaron LI2016-10-172-1/+15
| | | | Also update the general config for the new "galactic/snr" component.
* galactic/snr.py: Implemented missing but necessary functionalitiesAaron LI2016-10-172-26/+165
| | | | | | | | The necessary but missing functionalities to simulate the Galactic SNRs emission maps are implemented, and this new emission component is ready for testing. Also fix a typo in "utils/grid.py".
* utils/grid.py: Implement "map_grid_to_healpix()"Aaron LI2016-10-171-9/+29
| | | | | | | | The "map_grid_to_healpix()" maps the generated coordinate grid to a HEALPix map. Note that only effective HEALPix pixels are returned instead of a full HEALPix map. TODO: Try to avoid the explicit for loop to optimize the speed.
* Add utils/grid.py: Make coordinate grids for SNRsAaron LI2016-10-171-0/+157
| | | | | | | * make_coordinate_grid(): Make a Cartesian coordinate grid according to the specified center coordinate, size and grid resolution. * make_grid_ellipse(): Also generate an (rotated) ellipse and place into the coordinate grid.
* galactic: Add new component "galactic/snr": supernova remnantsAaron LI2016-10-172-0/+256
| | | | NOTE: very preliminary, and missing many necessary functions!
* configs: Add new section "[galactic][snr]" for SNRs simulationAaron LI2016-10-171-1/+19
| | | | NOTE: very preliminary and may change at any time!
* Force "DEBUG" log level if env variable "DEBUG_FG21SIM" setAaron LI2016-10-172-2/+10
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* utils/logging.py: Small updates to the docstrings and commentsAaron LI2016-10-171-14/+16
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* configs/manager.py: Change __init__() to load user configAaron LI2016-10-171-9/+15
| | | | | | | | Change the "__init__()" method to load the user configurations (i.e., by invoke the "read_userconfig()" method) instead of loading extra general configurations. Method "getn()": also check the validity for the parameter "sep".
* configs/manager.py: Various updates to docstring and comments.Aaron LI2016-10-171-23/+44
| | | | No functional changes.
* utils/draw.py: List the functions taken from "scikit-image"Aaron LI2016-10-171-2/+8
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* Fix the reStructuredText citation syntaxAaron LI2016-10-172-4/+4
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* utils/draw.py: Add disclaimer about the license: Modified BSDAaron LI2016-10-151-4/+41
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* configs: Update get_path() to take care None and non-string valueAaron LI2016-10-151-3/+24
| | | | | | * Return None if specified config is None or not exist * Raise ValueError if specified config is non-string * Update comments
* Add utils/convert.py: Implement brightness temperature conversionAaron LI2016-10-151-0/+63
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* Add utils/draw.py: draw circles and ellipsesAaron LI2016-10-151-0/+128
| | | | | | | | | These functions will be used to draw the image of a SNR or a radio halo. These functions are copied from the `scikit-image` project. Thanks! scikit-image: http://scikit-image.org/docs/dev/api/skimage.draw.html
* Add requirement "pandas" as "galactic/snr.py" will use itAaron LI2016-10-152-0/+2
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* configs: Switch to use `pkg_resources` to access config specsAaron LI2016-10-151-10/+19
| | | | | | | | | After this switch to `pkg_resources`, this package can also be installed as an EGG (a zip archive), which is more generic. References: * http://setuptools.readthedocs.io/en/latest/pkg_resources.html#basic-resource-access * http://setuptools.readthedocs.io/en/latest/setuptools.html#including-data-files
* Install 'bin/fg21sim-download-snr-data' and update requirements.Aaron LI2016-10-152-0/+5
| | | | Add two new requirements: beautifulsoup4, requests
* Add the executable bin/fg21sim-download-snr-dataAaron LI2016-10-151-0/+86
| | | | This script invokes the data/snr.py .
* Add data/snr.py to retrieve Green's Galactic SNRs catalog dataAaron LI2016-10-152-0/+334
| | | | | | Thanks D. A. Green for the Galactic SNRs catalog (294 objects)! http://www.mrao.cam.ac.uk/surveys/snrs/
* Makefile: remove argument "--upgrade" from pip3Aaron LI2016-10-151-1/+1
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* Install non-code files: config specificationsAaron LI2016-10-152-0/+3
| | | | | | | | | | | The default config specifications are required and should be installed. TODO: * Figure out the problem why "LICENSE" cannot be installed as well ?? References: * http://setuptools.readthedocs.io/en/latest/setuptools.html#including-data-files * http://python-packaging.readthedocs.io/en/latest/non-code-files.html
* Fix an import; Update one pattern and a commentAaron LI2016-10-142-3/+2
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* Add the new dependency: scipyAaron LI2016-10-142-0/+2
| | | | The utils/zea2healpix requires scipy.
* configs: Support env variable "DEBUG_FG21SIM" for debuggingAaron LI2016-10-141-0/+3
| | | | | | Since the logging is not avaiable at the moment, we can only use the plain `print` for debugging, if the environment variable "DEBUG_FG21SIM" is defined.
* Makefile: Fix quotationAaron LI2016-10-141-2/+2
| | | | | | | Do not quote Make variables, since Make does NOT understand or parse single- or double-quote characters in any way. Credit: http://stackoverflow.com/a/23332194
* Makefile: Add one liner to get the value of any variableAaron LI2016-10-141-0/+7
| | | | | | Handy liner to help debugging Makefile. Credit: http://blog.jgc.org/2015/04/the-one-line-you-should-add-to-every.html
* configs/validate.py: Check component configs only if enabledAaron LI2016-10-121-22/+26
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* configs/validate.py: Add checker for [galactic][freefree] configsAaron LI2016-10-121-0/+18
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* Tweak the docstring stylesAaron LI2016-10-112-6/+12
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